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Sun D, Zhang X, Zeng Z, Feng H, Yin Z, Guo N, Tang Y, Qiu R, Ma LQ, Cao Y. Novel Phosphate Transporter-B PvPTB1;1/1;2 Contribute to Efficient Phosphate Uptake and Arsenic Accumulation in As-Hyperaccumulator Pteris vittata. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2024; 58:7346-7356. [PMID: 38624169 DOI: 10.1021/acs.est.3c09335] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 04/17/2024]
Abstract
Arsenic (As) contamination in soil poses a potential threat to human health via crop uptake. As-hyperaccumulator Pteris vittata serves as a model plant to study As uptake and associated mechanisms. This study focuses on a novel P/AsV transport system mediated by low-affinity phosphate transporter-B 1 family (PTB1) in P. vittata. Here, we identified two plasma-membrane-localized PTB1 genes, PvPTB1;1/1;2, in vascular plants for the first time, which were 4.4-40-fold greater in expression in P. vittata than in other Pteris ferns. Functional complementation of a yeast P-uptake mutant and enhanced P accumulation in transgenic Arabidopsis thaliana confirmed their role in P uptake. Moreover, the expression of PvPTB1;1/1;2 facilitated the transport and accumulation of As in both yeast and A. thaliana shoots, demonstrating a comparable AsV uptake capacity. Microdissection-qPCR analysis and single-cell transcriptome analysis collectively suggest that PvPTB1;1/1;2 are specifically expressed in the epidermal cells of P. vittata roots. PTB1 may play a pivotal role in efficient P recycling during phytate secretion and hydrolysis in P. vittata roots. In summary, the dual P transport mechanisms consisting of high-affinity Pht1 and low-affinity PTB1 may have contributed to the efficient P/As uptake in P. vittata, thereby contributing to efficient phytoremediation for As-contaminated soils.
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Affiliation(s)
- Dan Sun
- School of Environmental Science and Engineering, Sun Yat-sen University, Guangzhou 510275, China
| | - Xiang Zhang
- School of Environmental Science and Engineering, Sun Yat-sen University, Guangzhou 510275, China
| | - Zihan Zeng
- School of Environmental Science and Engineering, Sun Yat-sen University, Guangzhou 510275, China
| | - Huayuan Feng
- School of Environmental Science and Engineering, Sun Yat-sen University, Guangzhou 510275, China
- Guangdong Provincial Key Lab for Environmental Pollution Control and Remediation Technology, Guangdong Provincial Engineering Research Center for Heavy Metal Contaminated Soil Remediation, Sun Yat-sen University, Guangzhou 510275, China
| | - Zhibin Yin
- Guangdong Key Laboratory for Crop Germplasm Resources Preservation and Utilization, Agro-Biological Gene Research Center, Guangdong Academy of Agricultural Sciences, Guangzhou 510640, Guangdong, China
| | - Nan Guo
- College of Horticulture and Landscape Architecture, Yangzhou University, Yangzhou 225009, Jiangsu, China
| | - Yetao Tang
- School of Environmental Science and Engineering, Sun Yat-sen University, Guangzhou 510275, China
- Guangdong Provincial Key Lab for Environmental Pollution Control and Remediation Technology, Guangdong Provincial Engineering Research Center for Heavy Metal Contaminated Soil Remediation, Sun Yat-sen University, Guangzhou 510275, China
- Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou 510642, China
| | - Rongliang Qiu
- School of Environmental Science and Engineering, Sun Yat-sen University, Guangzhou 510275, China
- Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou 510642, China
- College of Natural Resources and Environment, South China Agricultural University, Guangzhou 510642, China
- Guangdong Provincial Key Laboratory of Agricultural & Rural Pollution Abatement and Environmental Safety, South China Agricultural University, Guangzhou 510642, China
| | - Lena Q Ma
- Institute of Soil and Water Resources and Environmental Science, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, Zhejiang, China
| | - Yue Cao
- School of Environmental Science and Engineering, Sun Yat-sen University, Guangzhou 510275, China
- Guangdong Provincial Key Lab for Environmental Pollution Control and Remediation Technology, Guangdong Provincial Engineering Research Center for Heavy Metal Contaminated Soil Remediation, Sun Yat-sen University, Guangzhou 510275, China
- Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou 510642, China
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Guo X, Han T, Tan L, Zhao T, Zhu X, Huang W, Lin K, Zhang N, Wang J. The allelopathy and underlying mechanism of Skeletonema costatum on Karenia mikimotoi integrating transcriptomics profiling. AQUATIC TOXICOLOGY (AMSTERDAM, NETHERLANDS) 2022; 242:106042. [PMID: 34861574 DOI: 10.1016/j.aquatox.2021.106042] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/03/2021] [Revised: 11/08/2021] [Accepted: 11/20/2021] [Indexed: 06/13/2023]
Abstract
The roles of allelopathy for succession of marine phytoplankton communities remain controversial, especially for the development of blooms. Physiological parameters measurement (Fv/Fm value, MDA content, SOD activity, Na+/K+, Ca2+/ Mg2+-ATPase activity, cell size, chlorophyll content, apoptosis and cell cycle) and whole transcriptome profiling analysis were used to investigate allelopathy effect of Skeletonema costatum on Karenia mikimotoi. Filtrate and extracts from S. costatum culture inhibited the growth of K. mikimotoi. Allelopathic effects were dose-dependent for filtrate culture and extract culture. K. mikimotoi scavenged excessive ROS and adapted to the stress fastly and easily, so oxidative damage was not the main cause of the growth inhibition. Allelochemicals of S. costatum were found to influence the structure and function of cell membrane of K. mikimotoi by damaging membrane structure till to cell necrosis, which caused high mortality. Coupled with the sensitivity of algal cells to environmental stress and restricted cell cycle, allelopathy was suggested to be deeply detrimental to the development of competition algal population.
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Affiliation(s)
- Xin Guo
- Key Laboratory of Marine Chemistry Theory and Technology, Ministry of Education, Ocean University of China, Qingdao, 266100, China
| | - Tongzhu Han
- Key Laboratory of Marine Chemistry Theory and Technology, Ministry of Education, Ocean University of China, Qingdao, 266100, China
| | - Liju Tan
- Key Laboratory of Marine Chemistry Theory and Technology, Ministry of Education, Ocean University of China, Qingdao, 266100, China
| | - Ting Zhao
- Key Laboratory of Marine Chemistry Theory and Technology, Ministry of Education, Ocean University of China, Qingdao, 266100, China; Eco-Environmental Monitoring and Research Center, Pearl River Valley and South China Sea Ecology and Environment Administration, Ministry of Ecology and Environment, PCR, Guangzhou, 510610, China
| | - Xiaolin Zhu
- Key Laboratory of Marine Chemistry Theory and Technology, Ministry of Education, Ocean University of China, Qingdao, 266100, China
| | - Wenqiu Huang
- Key Laboratory of Marine Chemistry Theory and Technology, Ministry of Education, Ocean University of China, Qingdao, 266100, China
| | - Kun Lin
- Key Laboratory of Marine Chemistry Theory and Technology, Ministry of Education, Ocean University of China, Qingdao, 266100, China
| | - Na Zhang
- Key Laboratory of Marine Chemistry Theory and Technology, Ministry of Education, Ocean University of China, Qingdao, 266100, China
| | - Jiangtao Wang
- Key Laboratory of Marine Chemistry Theory and Technology, Ministry of Education, Ocean University of China, Qingdao, 266100, China.
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Matalin DA, Khramov DE, Shuvalov AV, Volkov VS, Balnokin YV, Popova LG. Cloning and Characterization of Two Putative P-Type ATPases from the Marine Microalga Dunaliella maritima Similar to Plant H +-ATPases and Their Gene Expression Analysis under Conditions of Hyperosmotic Salt Shock. PLANTS (BASEL, SWITZERLAND) 2021; 10:2667. [PMID: 34961138 PMCID: PMC8708325 DOI: 10.3390/plants10122667] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 10/29/2021] [Revised: 11/26/2021] [Accepted: 11/30/2021] [Indexed: 11/16/2022]
Abstract
The green microalga genus Dunaliella is mostly comprised of species that exhibit a wide range of salinity tolerance, including inhabitants of hyperhaline reservoirs. Na+ content in Dunaliella cells inhabiting saline environments is maintained at a fairly low level, comparable to that in the cells of freshwater organisms. However, despite a long history of studying the physiological and molecular mechanisms that ensure the ability of halotolerant Dunaliella species to survive at high concentrations of NaCl, the question of how Dunaliella cells remove excess Na+ ions entering from the environment is still debatable. For thermodynamic reasons it should be a primary active mechanism; for example, via a Na+-transporting ATPase, but the molecular identification of Na+-transporting mechanism in Dunaliella has not yet been carried out. Formerly, in the euryhaline alga D. maritima, we functionally identified Na+-transporting P-type ATPase in experiments with plasma membrane (PM) vesicles which were isolated from this alga. Here we describe the cloning of two putative P-type ATPases from D. maritima, DmHA1 and DmHA2. Phylogenetic analysis showed that both ATPases belong to the clade of proton P-type ATPases, but the similarity between DmHA1 and DmHA2 is not high. The expression of DmHA1 and DmHA2 in D. maritima cells under hyperosmotic salt shock was studied by qRT-PCR. Expression of DmHA1 gene decreases and remains at a relatively low level during the response of D. maritima cells to hyperosmotic salt shock. In contrast, expression of DmHA2 increases under hyperosmotic salt shock. This indicates that DmHA2 is important for overcoming hyperosmotic salt stress by the algal cells and as an ATPase it is likely directly involved in transport of Na+ ions. We assume that it is the DmHA2 ATPase that represents the Na+-transporting ATPase.
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Affiliation(s)
- Dmitrii A. Matalin
- K.A.Timiryazev Institute of Plant Physiology RAS, 127276 Moscow, Russia; (D.A.M.); (D.E.K.); (Y.V.B.)
| | - Dmitrii E. Khramov
- K.A.Timiryazev Institute of Plant Physiology RAS, 127276 Moscow, Russia; (D.A.M.); (D.E.K.); (Y.V.B.)
| | | | - Vadim S. Volkov
- K.A.Timiryazev Institute of Plant Physiology RAS, 127276 Moscow, Russia; (D.A.M.); (D.E.K.); (Y.V.B.)
| | - Yurii V. Balnokin
- K.A.Timiryazev Institute of Plant Physiology RAS, 127276 Moscow, Russia; (D.A.M.); (D.E.K.); (Y.V.B.)
| | - Larissa G. Popova
- K.A.Timiryazev Institute of Plant Physiology RAS, 127276 Moscow, Russia; (D.A.M.); (D.E.K.); (Y.V.B.)
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Kumari J, Rathore MS. Na+/K+-ATPase a Primary Membrane Transporter: An Overview and Recent Advances with Special Reference to Algae. J Membr Biol 2020; 253:191-204. [DOI: 10.1007/s00232-020-00119-0] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/12/2019] [Accepted: 05/02/2020] [Indexed: 12/16/2022]
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Wade R, Augyte S, Harden M, Nuzhdin S, Yarish C, Alberto F. Macroalgal germplasm banking for conservation, food security, and industry. PLoS Biol 2020; 18:e3000641. [PMID: 32058997 PMCID: PMC7046291 DOI: 10.1371/journal.pbio.3000641] [Citation(s) in RCA: 34] [Impact Index Per Article: 8.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Revised: 02/27/2020] [Indexed: 01/02/2023] Open
Abstract
Ex situ seed banking was first conceptualized and implemented in the early 20th century to maintain and protect crop lines. Today, ex situ seed banking is important for the preservation of heirloom strains, biodiversity conservation and ecosystem restoration, and diverse research applications. However, these efforts primarily target microalgae and terrestrial plants. Although some collections include macroalgae (i.e., seaweeds), they are relatively few and have yet to be connected via any international, coordinated initiative. In this piece, we provide a brief introduction to macroalgal germplasm banking and its application to conservation, industry, and mariculture. We argue that concerted effort should be made globally in germline preservation of marine algal species via germplasm banking with an overview of the technical advances for feasibility and ensured success. Seaweed germplasm banking is an important resource for biodiversity conservation, human food security, and industry innovation. This Perspective article maintains that an international, coordinative initiative is needed to fully develop and capitalize on this resource.
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Affiliation(s)
- Rachael Wade
- University of Wisconsin Milwaukee, Milwaukee, Wisconsin, United States of America
- * E-mail:
| | - Simona Augyte
- University of Connecticut Stamford, Stamford, Connecticut, United States of America
| | - Maddelyn Harden
- University of Southern California, Los Angeles, California, United States of America
| | - Sergey Nuzhdin
- University of Southern California, Los Angeles, California, United States of America
| | - Charles Yarish
- University of Connecticut Stamford, Stamford, Connecticut, United States of America
| | - Filipe Alberto
- University of Wisconsin Milwaukee, Milwaukee, Wisconsin, United States of America
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Hamid SS, Wakayama M, Ichihara K, Sakurai K, Ashino Y, Kadowaki R, Soga T, Tomita M. Metabolome profiling of various seaweed species discriminates between brown, red, and green algae. PLANTA 2019; 249:1921-1947. [PMID: 30891648 DOI: 10.1007/s00425-019-03134-1] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/28/2019] [Accepted: 03/07/2019] [Indexed: 06/09/2023]
Abstract
MAIN CONCLUSION Among seaweed groups, brown algae had characteristically high concentrations of mannitol, and green algae were characterised by fructose. In red algae, metabolite profiles of individual species should be evaluated. Seaweeds are metabolically different from terrestrial plants. However, general metabolite profiles of the three major seaweed groups, the brown, red, and green algae, and the effect of various extraction methods on metabolite profiling results have not been comprehensively explored. In this study, we evaluated the water-soluble metabolites in four brown, five red, and two green algae species collected from two sites in northern Japan, located in the Sea of Japan and the Pacific Ocean. Freeze-dried seaweed samples were processed by methanol-water extraction with or without chloroform and analysed by capillary electrophoresis- and liquid chromatography-mass spectrometry for metabolite characterisation. The metabolite concentration profiles showed distinctive characteristic depends on species and taxonomic groups, whereas the extraction methods did not have a significant effect. Taxonomic differences between the various seaweed metabolite profiles were well defined using only sugar metabolites but no other major compound types. Mannitol was the main sugar metabolites in brown algae, whereas fructose, sucrose, and glucose were found at high concentrations in green algae. In red algae, individual species had some characteristic metabolites, such as sorbitol in Pyropia pseudolinearis and panose in Dasya sessilis. The metabolite profiles generated in this study will be a resource and provide guidance for nutraceutical research studies because the information about metabolites in seaweeds is still very limited compared to that of terrestrial plants.
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Affiliation(s)
- Shahlizah Sahul Hamid
- Institute for Advanced Biosciences, Keio University, 246-2, Kakuganji-Mizukami, Tsuruoka, Yamagata, 997-0052, Japan
- Systems Biology Program, Graduate School of Media and Governance, Keio University, Fujisawa, 252-8520, Japan
| | - Masataka Wakayama
- Institute for Advanced Biosciences, Keio University, 246-2, Kakuganji-Mizukami, Tsuruoka, Yamagata, 997-0052, Japan.
- Systems Biology Program, Graduate School of Media and Governance, Keio University, Fujisawa, 252-8520, Japan.
| | - Kensuke Ichihara
- Muroran Marine Station, Field Science Centre for Northern Biosphere, Hokkaido University, 1-133-31, Funami-cho, Muroran, Hokkaido, 051-0013, Japan
| | - Katsutoshi Sakurai
- Yamagata Prefecture Fisheries Experiment Station, Kamo Ookuzure 594, Tsuruoka, Yamagata, 997-1204, Japan
| | - Yujin Ashino
- Systems Biology Program, Graduate School of Media and Governance, Keio University, Fujisawa, 252-8520, Japan
| | - Rie Kadowaki
- Systems Biology Program, Graduate School of Media and Governance, Keio University, Fujisawa, 252-8520, Japan
| | - Tomoyoshi Soga
- Institute for Advanced Biosciences, Keio University, 246-2, Kakuganji-Mizukami, Tsuruoka, Yamagata, 997-0052, Japan
- Systems Biology Program, Graduate School of Media and Governance, Keio University, Fujisawa, 252-8520, Japan
| | - Masaru Tomita
- Institute for Advanced Biosciences, Keio University, 246-2, Kakuganji-Mizukami, Tsuruoka, Yamagata, 997-0052, Japan
- Systems Biology Program, Graduate School of Media and Governance, Keio University, Fujisawa, 252-8520, Japan
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Wang W, Xu Y, Chen T, Xing L, Xu K, Xu Y, Ji D, Chen C, Xie C. Regulatory mechanisms underlying the maintenance of homeostasis in Pyropia haitanensis under hypersaline stress conditions. THE SCIENCE OF THE TOTAL ENVIRONMENT 2019; 662:168-179. [PMID: 30690352 DOI: 10.1016/j.scitotenv.2019.01.214] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/14/2018] [Revised: 01/04/2019] [Accepted: 01/18/2019] [Indexed: 05/10/2023]
Abstract
Intertidal macroalgae are highly resistant to hypersaline stress conditions. However, the underlying mechanism remains unknown. In the present study, the mechanism behind Pyropia haitanensis responses to two hypersaline stress conditions [100‰ (HSS_100) and 110‰ (HSS_110)] was investigated via analyses of physiological and transcriptomic changes. We observed that the differences between the responses of Py. haitanensis to HSS_100 and HSS_110 conditions involved the following three aspects: osmotic regulation, ionic homeostasis, and adjustment to secondary stresses. First, the water retention of Py. haitanensis was maintained through increased expansin production under HSS_100 conditions, while cell wall pectin needed to be protected from hydrolysis via the increased abundance of a pectin methylesterase inhibitor under HSS_110 conditions. Meanwhile, Py. haitanensis achieved stable and rapid osmotic adjustments because of the coordinated accumulation of inorganic ions (K+, Na+, and Cl-) and organic osmolytes (glycine betaine and trehalose) under HSS_100 conditions, but not under HSS_110 conditions. Second, Py. haitanensis maintained a higher K+/Na+ ratio under HSS_100 conditions than under HSS_110 conditions, mainly via the export of Na+ into the apoplast rather than compartmentalizing it into the vacuoles, and the enhanced uptake and retention of K+. However, K+/Na+ homeostasis was not completely disrupted during a short-term exposure to HSS_110 conditions. Finally, the Py. haitanensis antioxidant system scavenged more ROS and synthesized more heat shock proteins under HSS_100 conditions than under HSS_110 conditions, although thalli may have been able to maintain a certain redox balance during a short-term exposure to HSS_110 conditions. These differences may explain why Py. haitanensis can adapt to HSS_100 conditions rather than HSS_110 conditions, and also why the thalli exposed to HSS_110 conditions can recover after being transferred to normal seawater. Thus, the data presented herein may elucidate the mechanisms enabling Pyropia species to tolerate the sudden and periodic changes in salinity typical of intertidal systems.
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Affiliation(s)
- Wenlei Wang
- Fisheries College, Jimei University, Xiamen 361021, China; Key Laboratory of Healthy Mariculture for the East China Sea, Ministry of Agriculture, Xiamen 361021, China
| | - Yan Xu
- Fisheries College, Jimei University, Xiamen 361021, China; Key Laboratory of Healthy Mariculture for the East China Sea, Ministry of Agriculture, Xiamen 361021, China
| | - TianXiang Chen
- Fisheries College, Jimei University, Xiamen 361021, China; Key Laboratory of Healthy Mariculture for the East China Sea, Ministry of Agriculture, Xiamen 361021, China
| | - Lei Xing
- Fisheries College, Jimei University, Xiamen 361021, China; Key Laboratory of Healthy Mariculture for the East China Sea, Ministry of Agriculture, Xiamen 361021, China
| | - Kai Xu
- Fisheries College, Jimei University, Xiamen 361021, China; Key Laboratory of Healthy Mariculture for the East China Sea, Ministry of Agriculture, Xiamen 361021, China
| | - Yan Xu
- Fisheries College, Jimei University, Xiamen 361021, China; Key Laboratory of Healthy Mariculture for the East China Sea, Ministry of Agriculture, Xiamen 361021, China
| | - Dehua Ji
- Fisheries College, Jimei University, Xiamen 361021, China; Key Laboratory of Healthy Mariculture for the East China Sea, Ministry of Agriculture, Xiamen 361021, China
| | - Changsheng Chen
- Fisheries College, Jimei University, Xiamen 361021, China; Key Laboratory of Healthy Mariculture for the East China Sea, Ministry of Agriculture, Xiamen 361021, China
| | - Chaotian Xie
- Fisheries College, Jimei University, Xiamen 361021, China; Key Laboratory of Healthy Mariculture for the East China Sea, Ministry of Agriculture, Xiamen 361021, China.
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Pereira DT, Batista D, Filipin EP, Bouzon ZL, Simioni C. Effects of Ultraviolet Radiation (UVA + UVB) on Germination of Carpospores of the Red Macroalga Pyropia acanthophora var. brasiliensis (Rhodophyta, Bangiales): Morphological Changes. Photochem Photobiol 2018; 95:803-811. [PMID: 30466157 DOI: 10.1111/php.13055] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/02/2018] [Accepted: 11/14/2018] [Indexed: 11/28/2022]
Abstract
Carpospores of Pyropia acanthophora var. brasiliensis are dispersion and reproduction units responsible for giving rise to the diploid filamentous structure of this alga's life cycle. The present study assesses the anthropogenic impact of ultraviolet radiation (UVR) on morphology and ultrastructure, spore viability, autofluorescence of chloroplasts and the amount of intensity of ROS during the germination of carpospores. Carpospores were cultivated at 24 ± 1°C, 40 ± 10 μmol photons m-2 s-1 with photoperiod of 12 h and exposed to UVAR + UVBR for 3 h a day for 2 days with a daily dose of 5.05 J cm-2 for UVAR and 0.095 J cm-2 for UVBR. Samples were cultured for another five days exposed only to PAR in order to confirm their viability after the initial 2-day exposure. Carpospores showed significant sensitivity to UVR exposure after only 48 h, including changes in developmental rate, overall morphology, cell organization and chloroplast autofluorescence. UVR exposure inhibited germ tube formation in carpospores, which were mostly nonviable and/or altered, showing retracted cytoplasm and disorganized cytoplasmic content. Even in the absence of UVR exposure, carpospores remained collapsed, indicating irreversible damage. It can be concluded that UVR is a limiting factor for the development of P. acanthophora.
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Affiliation(s)
- Débora Tomazi Pereira
- Plant Cell Biology Laboratory, Department of Cell Biology, Embryology and Genetics, Federal University of Santa Catarina, Florianópolis, SC, Brazil
| | - Deonir Batista
- Plant Cell Biology Laboratory, Department of Cell Biology, Embryology and Genetics, Federal University of Santa Catarina, Florianópolis, SC, Brazil
| | - Elisa Poltronieri Filipin
- Plant Cell Biology Laboratory, Department of Cell Biology, Embryology and Genetics, Federal University of Santa Catarina, Florianópolis, SC, Brazil
| | - Zenilda Laurita Bouzon
- Plant Cell Biology Laboratory, Department of Cell Biology, Embryology and Genetics, Federal University of Santa Catarina, Florianópolis, SC, Brazil
| | - Carmen Simioni
- Plant Cell Biology Laboratory, Department of Cell Biology, Embryology and Genetics, Federal University of Santa Catarina, Florianópolis, SC, Brazil
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Popova LG, Belyaev DV, Shuvalov AV, Yurchenko AA, Matalin DA, Khramov DE, Orlova YV, Balnokin YV. In silico Analyses of Transcriptomes of the Marine Green Microalga Dunaliella tertiolecta: Identification of Sequences Encoding P-type ATPases. Mol Biol 2018. [DOI: 10.1134/s0026893318040167] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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10
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The PII signaling protein from red algae represents an evolutionary link between cyanobacterial and Chloroplastida PII proteins. Sci Rep 2018; 8:790. [PMID: 29335634 PMCID: PMC5768801 DOI: 10.1038/s41598-017-19046-7] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/08/2017] [Accepted: 12/15/2017] [Indexed: 11/16/2022] Open
Abstract
PII superfamily consists of widespread signal transduction proteins found in all domains of life. Whereas they are well-studied in Archaea, Bacteria and Chloroplastida, no PII homolog has been analyzed in Rhodophyta (red algae), where PII is encoded by a chloroplast localized glnB gene. Here, we characterized relevant sensory properties of PII from the red alga Porphyra purpurea (PpPII) in comparison to PII proteins from different phyla of oxygenic phototrophs (cyanobacteria, Chlamydomonas and Physcomitrella) to assess evolutionary conservation versus adaptive properties. Like its cyanobacterial counterparts, PpPII binds ATP/ADP and 2-oxoglutarate in synergy with ATP. However, green algae and land plant PII proteins lost the ability to bind ADP. In contrast to PII proteins from green algae and land plants, PpPII enhances the activity of N-acetyl-L-glutamate kinase (NAGK) and relieves it from feedback inhibition by arginine in a glutamine-independent manner. Like PII from Chloroplastida, PpPII is not able to interact with the cyanobacterial transcriptional co-activator PipX. These data emphasize the conserved role of NAGK as a major PII-interactor throughout the evolution of oxygenic phototrophs, and confirms the specific role of PipX for cyanobacteria. Our results highlight the PII signaling system in red algae as an evolutionary intermediate between Cyanobacteria and Chlorophyta.
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Im S, Lee HN, Jung HS, Yang S, Park EJ, Hwang MS, Jeong WJ, Choi DW. Transcriptome-Based Identification of the Desiccation Response Genes in Marine Red Algae Pyropia tenera (Rhodophyta) and Enhancement of Abiotic Stress Tolerance by PtDRG2 in Chlamydomonas. MARINE BIOTECHNOLOGY (NEW YORK, N.Y.) 2017; 19:232-245. [PMID: 28421378 DOI: 10.1007/s10126-017-9744-x] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/12/2016] [Accepted: 03/06/2017] [Indexed: 06/07/2023]
Abstract
Pyropia tenera (Kjellman) are marine red algae that grow in the intertidal zone and lose more than 90% of water during hibernal low tides every day. In order to identify the desiccation response gene (DRG) in P. tenera, we generated 1,444,210 transcriptome sequences using the 454-FLX platform from the gametophyte under control and desiccation conditions. De novo assembly of the transcriptome reads generated 13,170 contigs, covering about 12 Mbp. We selected 1160 differentially expressed genes (DEGs) in response to desiccation stress based on reads per kilobase per million reads (RPKM) expression values. As shown in green higher plants, DEGs under desiccation are composed of two groups of genes for gene regulation networks and functional proteins for carbohydrate metabolism, membrane perturbation, compatible solutes, and specific proteins similar to higher plants. DEGs that show no significant homology with known sequences in public databases were selected as DRGs in P. tenera. PtDRG2 encodes a novel polypeptide of 159 amino acid residues locating chloroplast. When PtDRG2 was overexpressed in Chlamydomonas, the PtDRG2 confer mannitol and salt tolerance in transgenic cells. These results suggest that Pyropia may possess novel genes that differ from green plants, although the desiccation tolerance mechanism in red algae is similar to those of higher green plants. These transcriptome sequences will facilitate future studies to understand the common processes and novel mechanisms involved in desiccation stress tolerance in red algae.
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Affiliation(s)
- Sungoh Im
- Department of Biology Education, Chonnam National University and Khumho Research Institute, Gwangju, 61186, South Korea
| | - Ha-Nul Lee
- Department of Biology Education, Chonnam National University and Khumho Research Institute, Gwangju, 61186, South Korea
| | - Hyun Shin Jung
- Department of Biology Education, Chonnam National University and Khumho Research Institute, Gwangju, 61186, South Korea
| | - Sunghwan Yang
- Department of Biology Education, Chonnam National University and Khumho Research Institute, Gwangju, 61186, South Korea
| | - Eun-Jeong Park
- Seaweed Research Center, National Fisheries Research and Development Institute, Mokpo, 58746, South Korea
| | - Mi Sook Hwang
- Seaweed Research Center, National Fisheries Research and Development Institute, Mokpo, 58746, South Korea
| | - Won-Joong Jeong
- Plant Systems Engineering Research Center, Korea Research Institute of Bioscience and Biotechnology, Daejeon, 34141, South Korea
| | - Dong-Woog Choi
- Department of Biology Education, Chonnam National University and Khumho Research Institute, Gwangju, 61186, South Korea.
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Bonnot C, Proust H, Pinson B, Colbalchini FPL, Lesly-Veillard A, Breuninger H, Champion C, Hetherington AJ, Kelly S, Dolan L. Functional PTB phosphate transporters are present in streptophyte algae and early diverging land plants. THE NEW PHYTOLOGIST 2017; 214:1158-1171. [PMID: 28134432 DOI: 10.1111/nph.14431] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/11/2016] [Accepted: 12/15/2016] [Indexed: 05/12/2023]
Abstract
Two inorganic phosphate (Pi) uptake mechanisms operate in streptophytes and chlorophytes, the two lineages of green plants. PHOSPHATE TRANSPORTER B (PTB) proteins are hypothesized to be the Na+ /Pi symporters catalysing Pi uptake in chlorophytes, whereas PHOSPHATE TRANSPORTER 1 (PHT1) proteins are the H+ /Pi symporters that carry out Pi uptake in angiosperms. PHT1 proteins are present in all streptophyte lineages. However, Pi uptake in streptophyte algae and marine angiosperms requires Na+ influx, suggesting that Na+ /Pi symporters also function in some streptophytes. We tested the hypothesis that Na+ /Pi symporters exist in streptophytes. We identified PTB sequences in streptophyte genomes. Core PTB proteins are present at the plasma membrane of the liverwort Marchantia polymorpha. The expression of M. polymorpha core PTB proteins in the Saccharomyces cerevisiae pho2 mutant defective in high-affinity Pi transport rescues growth in low-Pi environments. Moreover, levels of core PTB mRNAs of M. polymorpha and the streptophyte alga Coleochaete nitellarum are higher in low-Pi than in Pi-replete conditions, consistent with a role in Pi uptake from the environment. We conclude that land plants inherited two Pi uptake mechanisms - mediated by the PTB and PHT1 proteins, respectively - from their streptophyte algal ancestor. Both systems operate in parallel in extant early diverging land plants.
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Affiliation(s)
- Clémence Bonnot
- Department of Plant Sciences, University of Oxford, South Parks Road, Oxford, OX1 3RB, UK
| | - Hélène Proust
- Department of Plant Sciences, University of Oxford, South Parks Road, Oxford, OX1 3RB, UK
| | - Benoît Pinson
- Centre National de la Recherche Scientifique (CNRS), UMR 5095 Institut de Biochimie et Génétique Cellulaire (IBGC), Bordeaux Cedex, F-33077, France
- Université de Bordeaux, Bordeaux, F-33000, France
| | | | - Alexis Lesly-Veillard
- Department of Plant Sciences, University of Oxford, South Parks Road, Oxford, OX1 3RB, UK
| | - Holger Breuninger
- Department of Plant Sciences, University of Oxford, South Parks Road, Oxford, OX1 3RB, UK
| | - Clément Champion
- Department of Plant Sciences, University of Oxford, South Parks Road, Oxford, OX1 3RB, UK
| | | | - Steven Kelly
- Department of Plant Sciences, University of Oxford, South Parks Road, Oxford, OX1 3RB, UK
| | - Liam Dolan
- Department of Plant Sciences, University of Oxford, South Parks Road, Oxford, OX1 3RB, UK
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Hori K, Nobusawa T, Watanabe T, Madoka Y, Suzuki H, Shibata D, Shimojima M, Ohta H. Tangled evolutionary processes with commonality and diversity in plastidial glycolipid synthesis in photosynthetic organisms. Biochim Biophys Acta Mol Cell Biol Lipids 2016; 1861:1294-1308. [PMID: 27108062 DOI: 10.1016/j.bbalip.2016.04.015] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/17/2015] [Revised: 04/09/2016] [Accepted: 04/15/2016] [Indexed: 01/25/2023]
Abstract
In photosynthetic organisms, the photosynthetic membrane constitutes a scaffold for light-harvesting complexes and photosynthetic reaction centers. Three kinds of glycolipids, namely monogalactosyldiacylglycerol, digalactosyldiacylglycerol, and sulfoquinovosyldiacylglycerol, constitute approximately 80-90% of photosynthetic membrane lipids and are well conserved from tiny cyanobacteria to the leaves of huge trees. These glycolipids perform a wide variety of functions beyond biological membrane formation. In particular, the capability of adaptation to harsh environments through regulation of membrane glycolipid composition is essential for healthy growth and development of photosynthetic organisms. The genome analysis and functional genetics of the model seed plant Arabidopsis thaliana have yielded many new findings concerning the biosynthesis, regulation, and functions of glycolipids. Nevertheless, it remains to be clarified how the complex biosynthetic pathways and well-organized functions of glycolipids evolved in early and primitive photosynthetic organisms, such as cyanobacteria, to yield modern photosynthetic organisms like land plants. Recently, genome data for many photosynthetic organisms have been made available as the fruit of the rapid development of sequencing technology. We also have reported the draft genome sequence of the charophyte alga Klebsormidium flaccidum, which is an intermediate organism between green algae and land plants. Here, we performed a comprehensive phylogenic analysis of glycolipid biosynthesis genes in oxygenic photosynthetic organisms including K. flaccidum. Based on the results together with membrane lipid analysis of this alga, we discuss the evolution of glycolipid synthesis in photosynthetic organisms. This article is part of a Special Issue entitled: Plant Lipid Biology edited by Kent D. Chapman and Ivo Feussner.
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Affiliation(s)
- Koichi Hori
- Tokyo Institute of Technology, School of Life Science and Technology, Yokohama City, Kanagawa 226-8501, Japan; CREST, Japan Science and Technology Agency, Japan
| | - Takashi Nobusawa
- Tokyo Institute of Technology, School of Life Science and Technology, Yokohama City, Kanagawa 226-8501, Japan; CREST, Japan Science and Technology Agency, Japan
| | - Tei Watanabe
- Tokyo Institute of Technology, Graduate School of Bioscience and Biotechnology, Yokohama City, Kanagawa 226-8501, Japan
| | - Yuka Madoka
- Tokyo Institute of Technology, School of Life Science and Technology, Yokohama City, Kanagawa 226-8501, Japan
| | - Hideyuki Suzuki
- Kazusa DNA Research Institute, 2-6-7 Kazusa-kamatari, Kisarazu, Chiba 292-0818, Japan
| | - Daisuke Shibata
- Kazusa DNA Research Institute, 2-6-7 Kazusa-kamatari, Kisarazu, Chiba 292-0818, Japan
| | - Mie Shimojima
- Tokyo Institute of Technology, School of Life Science and Technology, Yokohama City, Kanagawa 226-8501, Japan
| | - Hiroyuki Ohta
- Tokyo Institute of Technology, School of Life Science and Technology, Yokohama City, Kanagawa 226-8501, Japan; CREST, Japan Science and Technology Agency, Japan; Tokyo Institute of Technology, Earth-Life Science Institute, 2-12-1 Ookayama, Meguro-ku, Tokyo 152-8551, Japan.
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14
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Wang L, Mao Y, Kong F, Cao M, Sun P. Genome-wide expression profiles of Pyropia haitanensis in response to osmotic stress by using deep sequencing technology. BMC Genomics 2015; 16:1012. [PMID: 26611675 PMCID: PMC4661969 DOI: 10.1186/s12864-015-2226-5] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/23/2015] [Accepted: 11/17/2015] [Indexed: 12/17/2022] Open
Abstract
BACKGROUND Pyropia haitanensis is an economically important marine crop grown in harsh intertidal habitats of southern China; it is also an excellent model system for studying mechanisms of stress tolerance. To understand the molecular mechanisms underlying osmotic tolerance and adaptation to intertidal environments, a comprehensive analysis of genome-wide gene expression profiles in response to dehydration and rehydration in Py. haitanensis was undertaken using digital gene expression profile (DGE) approaches combined with de novo transcriptome sequencing. RESULTS RNA-sequencing of the pooled RNA samples from different developmental phases and stress treatments was performed, which generated a total of 47.7 million clean reads. These reads were de novo assembled into 28,536 unigenes (≥ 200 bp), of which 18,217 unigenes (63.83 %) were annotated in at least one reference database. DGE analysis was performed on four treatments (two biological replicates per treatment), which included moderate dehydration, severe dehydration, rehydration, and normal conditions. The number of raw reads per sample ranged from 12.47 to 15.79 million, with an average of 14.69 million reads per sample. After quality filtering, the number of clean reads per sample ranged from 11.83 to 15.04 million. All distinct sequencing reads were annotated using the transcriptome of Py. haitanensis as reference. A total of 1,681 unigenes showed significant differential expression between moderate dehydration and normal conditions, in which 977 genes were upregulated, and 704 genes were downregulated. Between severe dehydration and normal conditions, 1,993 unigenes showed significantly altered expression, which included both upregulated (1,219) and downregulated genes (774). In addition, 1,086 differentially expressed genes were detected between rehydration and normal conditions, of which 720 genes were upregulated and 366 unigenes were downregulated. Most gene expression patterns in response to dehydration differed from that of rehydration, except for the synthesis of unsaturated fatty acids, several transcription factor families, and molecular chaperones that have been collectively implicated in the processes of dehydration and rehydration in Py. haitanensis. CONCLUSIONS Taken together, these data provide a global high-resolution analysis of gene expression changes during osmotic stress that could potentially serve as a key resource for understanding the biology of osmotic acclimation in intertidal red seaweed.
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Affiliation(s)
- Li Wang
- Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, College of Marine Life Science, Ocean University of China, Qingdao, 266003, China.
- Institute of Plant Resources, Dalian Nationalities University, Dalian, 116600, China.
| | - Yunxiang Mao
- Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, College of Marine Life Science, Ocean University of China, Qingdao, 266003, China.
- Laboratory for Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, Qingdao, 266200, China.
| | - Fanna Kong
- Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, College of Marine Life Science, Ocean University of China, Qingdao, 266003, China.
| | - Min Cao
- Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, College of Marine Life Science, Ocean University of China, Qingdao, 266003, China.
| | - Peipei Sun
- Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, College of Marine Life Science, Ocean University of China, Qingdao, 266003, China.
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15
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Hafting JT, Craigie JS, Stengel DB, Loureiro RR, Buschmann AH, Yarish C, Edwards MD, Critchley AT. Prospects and challenges for industrial production of seaweed bioactives. JOURNAL OF PHYCOLOGY 2015; 51:821-837. [PMID: 26986880 DOI: 10.1111/jpy.12326] [Citation(s) in RCA: 69] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/25/2014] [Accepted: 06/09/2015] [Indexed: 06/05/2023]
Abstract
Large-scale seaweed cultivation has been instrumental in globalizing the seaweed industry since the 1950s. The domestication of seaweed cultivars (begun in the 1940s) ended the reliance on natural cycles of raw material availability for some species, with efforts driven by consumer demands that far exceeded the available supplies. Currently, seaweed cultivation is unrivaled in mariculture with 94% of annual seaweed biomass utilized globally being derived from cultivated sources. In the last decade, research has confirmed seaweeds as rich sources of potentially valuable, health-promoting compounds. Most existing seaweed cultivars and current cultivation techniques have been developed for producing commoditized biomass, and may not necessarily be optimized for the production of valuable bioactive compounds. The future of the seaweed industry will include the development of high value markets for functional foods, cosmeceuticals, nutraceuticals, and pharmaceuticals. Entry into these markets will require a level of standardization, efficacy, and traceability that has not previously been demanded of seaweed products. Both internal concentrations and composition of bioactive compounds can fluctuate seasonally, geographically, bathymetrically, and according to genetic variability even within individual species, especially where life history stages can be important. History shows that successful expansion of seaweed products into new markets requires the cultivation of domesticated seaweed cultivars. Demands of an evolving new industry based upon efficacy and standardization will require the selection of improved cultivars, the domestication of new species, and a refinement of existing cultivation techniques to improve quality control and traceability of products.
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Affiliation(s)
- Jeff T Hafting
- Acadian Seaplants Limited, 30 Brown Avenue, Cornwallis, Nova Scotia, Canada
| | - James S Craigie
- Acadian Seaplants Limited, 30 Brown Avenue, Cornwallis, Nova Scotia, Canada
| | - Dagmar B Stengel
- Botany and Plant Science, School of Natural Sciences & Ryan Institute for Environmental, Galway, Ireland
| | - Rafael R Loureiro
- Department of Biology, Ave Maria University, Ave Maria, Florida, USA
| | | | - Charles Yarish
- Department of Ecology & Evolutionary Biology, University of Conneticut, Stamford, Connecticut, USA
| | | | - Alan T Critchley
- Acadian Seaplants Limited, 30 Brown Avenue, Cornwallis, Nova Scotia, Canada
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16
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Muralidhar A, Shabala L, Broady P, Shabala S, Garrill A. Mechanisms underlying turgor regulation in the estuarine alga Vaucheria erythrospora (Xanthophyceae) exposed to hyperosmotic shock. PLANT, CELL & ENVIRONMENT 2015; 38:1514-1527. [PMID: 25546818 DOI: 10.1111/pce.12503] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/18/2014] [Revised: 12/07/2014] [Accepted: 12/11/2014] [Indexed: 06/04/2023]
Abstract
Aquatic organisms are often exposed to dramatic changes in salinity in the environment. Despite decades of research, many questions related to molecular and physiological mechanisms mediating sensing and adaptation to salinity stress remain unanswered. Here, responses of Vaucheria erythrospora, a turgor-regulating xanthophycean alga from an estuarine habitat, have been investigated. The role of ion uptake in turgor regulation was studied using a single cell pressure probe, microelectrode ion flux estimation (MIFE) technique and membrane potential (Em ) measurements. Turgor recovery was inhibited by Gd(3+) , tetraethylammonium chloride (TEA), verapamil and orthovanadate. A NaCl-induced shock rapidly depolarized the plasma membrane while an isotonic sorbitol treatment hyperpolarized it. Turgor recovery was critically dependent on the presence of Na(+) but not K(+) and Cl(-) in the incubation media. Na(+) uptake was strongly decreased by amiloride and changes in net Na(+) and H(+) fluxes were oppositely directed. This suggests active uptake of Na(+) in V. erythrospora mediated by an antiport Na(+) /H(+) system, functioning in the direction opposite to that of the SOS1 exchanger in higher plants. The alga also retains K(+) efficiently when exposed to high NaCl concentrations. Overall, this study provides insights into mechanisms enabling V. erythrospora to regulate turgor via ion movements during hyperosmotic stress.
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Affiliation(s)
- Abishek Muralidhar
- School of Biological Sciences, University of Canterbury, Christchurch, 8011, New Zealand
| | - Lana Shabala
- School of Land and Food and Tasmanian Institute for Agriculture, University of Tasmania, Hobart, Tasmania, 7001, Australia
| | - Paul Broady
- School of Biological Sciences, University of Canterbury, Christchurch, 8011, New Zealand
| | - Sergey Shabala
- School of Land and Food and Tasmanian Institute for Agriculture, University of Tasmania, Hobart, Tasmania, 7001, Australia
| | - Ashley Garrill
- School of Biological Sciences, University of Canterbury, Christchurch, 8011, New Zealand
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17
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Yang LE, Huang XQ, Hang Y, Deng YY, Lu QQ, Lu S. The P450-type carotene hydroxylase PuCHY1 from Porphyra suggests the evolution of carotenoid metabolism in red algae. JOURNAL OF INTEGRATIVE PLANT BIOLOGY 2014; 56:902-915. [PMID: 24942088 DOI: 10.1111/jipb.12229] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/04/2014] [Accepted: 06/16/2014] [Indexed: 06/03/2023]
Abstract
Carotene hydroxylases catalyze the hydroxylation of α- and β-carotene hydrocarbons into xanthophylls. In red algae, β-carotene is a ubiquitously distributed carotenoid, and hydroxylated carotenoids such as zeaxanthin and lutein are also found. However, no enzyme with carotene hydroxylase activity had been previously identified in red algae. Here, we report the isolation of a gene encoding a cytochrome P450-type carotene hydroxylase (PuCHY1) from Porphyra umbilicalis, a red alga with an ancient origin. Sequence comparisons found PuCHY1 belongs to the CYP97B subfamily, which has members from different photosynthetic organisms ranging from red algae to land plants. Functional complementation in Escherichia coli suggested that PuCHY1 catalyzed the conversion from β-carotene to zeaxanthin. When we overexpressed PuCHY1 in the Arabidopsis thaliana chy2 mutant, pigment analysis showed a significant accumulation of hydroxylated carotenoids, including neoxanthin, violaxanthin, and lutein in the leaves of transgenic plants. These results confirmed a β-hydroxylation activity of PuCHY1, and also suggested a possible ϵ-hydroxylation function. The pigment profile and gene expression analyses of the algal thallus under high-light stress suggested that P. umbilicalis is unlikely to operate a partial xanthophyll cycle for photoprotection.
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Affiliation(s)
- Li-En Yang
- State Key Laboratory of Pharmaceutical Biotechnology, School of Life Sciences, Nanjing University, Nanjing, 210093, China
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18
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Mikami K. Structural divergence and loss of phosphoinositide-specific phospholipase C signaling components during the evolution of the green plant lineage: implications from structural characteristics of algal components. FRONTIERS IN PLANT SCIENCE 2014; 5:380. [PMID: 25140171 PMCID: PMC4122161 DOI: 10.3389/fpls.2014.00380] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/26/2014] [Accepted: 07/17/2014] [Indexed: 05/03/2023]
Affiliation(s)
- Koji Mikami
- Division of Marine Life Science, Genetics and Genomics, Faculty of Fisheries Sciences, Hokkaido UniversityHakodate, Japan
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19
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Chan CX, Bhattacharya D. Analysis of horizontal genetic transfer in red algae in the post-genomics age. Mob Genet Elements 2014; 3:e27669. [PMID: 24475368 DOI: 10.4161/mge.27669] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/31/2013] [Accepted: 12/27/2013] [Indexed: 12/29/2022] Open
Abstract
The recently published genome of the unicellular red alga Porphyridium purpureum revealed a gene-rich, intron-poor species, which is surprising for a free-living mesophile. Of the 8,355 predicted protein-coding regions, up to 773 (9.3%) were implicated in horizontal genetic transfer (HGT) events involving other prokaryote and eukaryote lineages. A much smaller number, up to 174 (2.1%) showed unambiguous evidence of vertical inheritance. Together with other red algal genomes, nearly all published in 2013, these data provide an excellent platform for studying diverse aspects of algal biology and evolution. This novel information will help investigators test existing hypotheses about the impact of endosymbiosis and HGT on algal evolution and enable comparative analysis within a more-refined, hypothesis-driven framework that extends beyond HGT. Here we explore the impacts of this infusion of red algal genome data on addressing questions regarding the complex nature of algal evolution and highlight the need for scalable phylogenomic approaches to handle the forthcoming deluge of sequence information.
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Affiliation(s)
- Cheong Xin Chan
- Institute for Molecular Bioscience, and ARC Centre of Excellence in Bioinformatics; The University of Queensland; Brisbane, QLD Australia
| | - Debashish Bhattacharya
- Department of Ecology, Evolution and Natural Resources, and Institute of Marine and Coastal Sciences; Rutgers University; New Brunswick, NJ USA
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20
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Wang L, Mao Y, Kong F, Li G, Ma F, Zhang B, Sun P, Bi G, Zhang F, Xue H, Cao M. Complete sequence and analysis of plastid genomes of two economically important red algae: Pyropia haitanensis and Pyropia yezoensis. PLoS One 2013; 8:e65902. [PMID: 23734264 PMCID: PMC3667073 DOI: 10.1371/journal.pone.0065902] [Citation(s) in RCA: 53] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/05/2013] [Accepted: 04/29/2013] [Indexed: 11/19/2022] Open
Abstract
BACKGROUND Pyropia haitanensis and P. yezoensis are two economically important marine crops that are also considered to be research models to study the physiological ecology of intertidal seaweed communities, evolutionary biology of plastids, and the origins of sexual reproduction. This plastid genome information will facilitate study of breeding, population genetics and phylogenetics. PRINCIPAL FINDINGS We have fully sequenced using next-generation sequencing the circular plastid genomes of P. hatanensis (195,597 bp) and P. yezoensis (191,975 bp), the largest of all the plastid genomes of the red lineage sequenced to date. Organization and gene contents of the two plastids were similar, with 211-213 protein-coding genes (including 29-31 unknown-function ORFs), 37 tRNA genes, and 6 ribosomal RNA genes, suggesting a largest coding capacity in the red lineage. In each genome, 14 protein genes overlapped and no interrupted genes were found, indicating a high degree of genomic condensation. Pyropia maintain an ancient gene content and conserved gene clusters in their plastid genomes, containing nearly complete repertoires of the plastid genes known in photosynthetic eukaryotes. Similarity analysis based on the whole plastid genome sequences showed the distance between P. haitanensis and P. yezoensis (0.146) was much smaller than that of Porphyra purpurea and P. haitanensis (0.250), and P. yezoensis (0.251); this supports re-grouping the two species in a resurrected genus Pyropia while maintaining P. purpurea in genus Porphyra. Phylogenetic analysis supports a sister relationship between Bangiophyceae and Florideophyceae, though precise phylogenetic relationships between multicellular red alage and chromists were not fully resolved. CONCLUSIONS These results indicate that Pyropia have compact plastid genomes. Large coding capacity and long intergenic regions contribute to the size of the largest plastid genomes reported for the red lineage. Possessing the largest coding capacity and ancient gene content yet found reveal that Pyropia are more primitive multicellular red algae.
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Affiliation(s)
- Li Wang
- Key Laboratory of Marine Genetics and Breeding, College of Marine Life Sciences, Ocean University of China, Qingdao, China
| | - Yunxiang Mao
- Key Laboratory of Marine Genetics and Breeding, College of Marine Life Sciences, Ocean University of China, Qingdao, China
- * E-mail:
| | - Fanna Kong
- Key Laboratory of Marine Genetics and Breeding, College of Marine Life Sciences, Ocean University of China, Qingdao, China
| | - Guiyang Li
- Key Laboratory for Sustainable Utilization of Marine Fisheries Resources, Ministry of Agriculture, Yellow Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Qingdao, China
| | - Fei Ma
- Key Laboratory of Marine Genetics and Breeding, College of Marine Life Sciences, Ocean University of China, Qingdao, China
| | - Baolong Zhang
- Key Laboratory of Marine Genetics and Breeding, College of Marine Life Sciences, Ocean University of China, Qingdao, China
| | - Peipei Sun
- Key Laboratory of Marine Genetics and Breeding, College of Marine Life Sciences, Ocean University of China, Qingdao, China
| | - Guiqi Bi
- Key Laboratory of Marine Genetics and Breeding, College of Marine Life Sciences, Ocean University of China, Qingdao, China
| | - Fangfang Zhang
- Key Laboratory of Marine Genetics and Breeding, College of Marine Life Sciences, Ocean University of China, Qingdao, China
| | - Hongfan Xue
- Key Laboratory of Marine Genetics and Breeding, College of Marine Life Sciences, Ocean University of China, Qingdao, China
| | - Min Cao
- Key Laboratory of Marine Genetics and Breeding, College of Marine Life Sciences, Ocean University of China, Qingdao, China
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21
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Kumari P, Bijo AJ, Mantri VA, Reddy CRK, Jha B. Fatty acid profiling of tropical marine macroalgae: an analysis from chemotaxonomic and nutritional perspectives. PHYTOCHEMISTRY 2013; 86:44-56. [PMID: 23168246 DOI: 10.1016/j.phytochem.2012.10.015] [Citation(s) in RCA: 72] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/04/2012] [Revised: 10/18/2012] [Accepted: 10/22/2012] [Indexed: 05/24/2023]
Abstract
The lipid and fatty acid (FA) compositions for 100 marine macroalgae were determined and discussed from the context of chemotaxonomic and nutritional perspectives. In general, the lipid contents in macroalgae were low (2.3-20 mg/g fr. wt.) but with substantially high amounts of nutritionally important polyunsaturated fatty acids (PUFAs) such as LA, ALA, STA, AA, EPA and DHA, that ranged from 10% to 70% of TFAs. More than 90% of the species showed nutritionally beneficial n6/n3 ratio (0.1:1-3.6:1) (p≤0.001). A closer look at the FA data revealed characteristic chemotaxonomic features with C18 PUFAs (LA, ALA and STA) being higher in Chlorophyta, C20 PUFAs (AA and EPA) in Rhodophyta while Phaeophyta depicted evenly distribution of C18 and C20 PUFAs. The ability of macroalgae to produce long-chain PUFAs could be attributed to the coupling of chloroplastic FA desaturase enzyme system from a photosynthetic endosymbiont to the FA desaturase/elongase enzyme system of a non-photosynthetic eukaryotic protist host. Further, the principal component analysis segregated the three macroalgal groups with a marked distinction of different genera, families and orders, Hierarchical cluster analyses substantiated the phylogenetic relationships of all orders investigated except for those red algal taxa belonging to Gigartinales, Ceramiales, Halymeniales and Rhodymeniales for which increased sampling effort is required to infer a conclusion. Also, the groups deduced from FA compositions were congruent with the clades inferred from nuclear and plastid genome sequences. This study further indicates that FA signatures could be employed as a valid chemotaxonomic tool to differentiate macroalgae at higher taxonomic levels such as family and orders.
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Affiliation(s)
- Puja Kumari
- Discipline of Marine Biotechnology and Ecology, CSIR-Central Salt and Marine Chemicals Research Institute, Bhavnagar, Gujarat 364002, India
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22
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Chan CX, Blouin NA, Zhuang Y, Zäuner S, Prochnik SE, Lindquist E, Lin S, Benning C, Lohr M, Yarish C, Gantt E, Grossman AR, Lu S, Müller K, W Stiller J, Brawley SH, Bhattacharya D. Porphyra (Bangiophyceae) Transcriptomes Provide Insights Into Red Algal Development And Metabolism. JOURNAL OF PHYCOLOGY 2012; 48:1328-1342. [PMID: 27009986 DOI: 10.1111/j.1529-8817.2012.01229.x] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/01/2012] [Accepted: 07/06/2012] [Indexed: 06/05/2023]
Abstract
The red seaweed Porphyra (Bangiophyceae) and related Bangiales have global economic importance. Here, we report the analysis of a comprehensive transcriptome comprising ca. 4.7 million expressed sequence tag (EST) reads from P. umbilicalis (L.) J. Agardh and P. purpurea (Roth) C. Agardh (ca. 980 Mbp of data generated using 454 FLX pyrosequencing). These ESTs were isolated from the haploid gametophyte (blades from both species) and diploid conchocelis stage (from P. purpurea). In a bioinformatic analysis, only 20% of the contigs were found to encode proteins of known biological function. Comparative analysis of predicted protein functions in mesophilic (including Porphyra) and extremophilic red algae suggest that the former has more putative functions related to signaling, membrane transport processes, and establishment of protein complexes. These enhanced functions may reflect general mesophilic adaptations. A near-complete repertoire of genes encoding histones and ribosomal proteins was identified, with some differentially regulated between the blade and conchocelis stage in P. purpurea. This finding may reflect specific regulatory processes associated with these distinct phases of the life history. Fatty acid desaturation patterns, in combination with gene expression profiles, demonstrate differences from seed plants with respect to the transport of fatty acid/lipid among subcellular compartments and the molecular machinery of lipid assembly. We also recovered a near-complete gene repertoire for enzymes involved in the formation of sterols and carotenoids, including candidate genes for the biosynthesis of lutein. Our findings provide key insights into the evolution, development, and biology of Porphyra, an important lineage of red algae.
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Affiliation(s)
- Cheong Xin Chan
- Department of Ecology, Evolution and Natural Resources, Institute of Marine and Coastal Sciences, Rutgers University, New Brunswick, New Jersey, 08901, USA
| | - Nicolas A Blouin
- School of Marine Sciences, University of Maine, Orono, Maine, 04469, USA
| | - Yunyun Zhuang
- Department of Marine Sciences, University of Connecticut, Groton, Connecticut, 06340, USA
| | - Simone Zäuner
- Department of Biochemistry and Molecular Biology, Michigan State University, East Lansing, Michigan, 48824, USA
| | - Simon E Prochnik
- U.S. Department of Energy, Joint Genome Institute, Walnut Creek, California, 94958, USA
| | - Erika Lindquist
- U.S. Department of Energy, Joint Genome Institute, Walnut Creek, California, 94958, USA
| | - Senjie Lin
- Department of Marine Sciences, University of Connecticut, Groton, Connecticut, 06340, USA
| | - Christoph Benning
- Department of Biochemistry and Molecular Biology, Michigan State University, East Lansing, Michigan, 48824, USA
| | - Martin Lohr
- Institut für Allgemeine Botanik, Johannes Gutenberg-Universität Mainz, 55099, Mainz, Germany
| | - Charles Yarish
- Department of Ecology and Evolutionary Biology, University of Connecticut, Stamford, Connecticut, 06901, USA
| | - Elisabeth Gantt
- Department of Cell Biology and Molecular Genetics, University of Maryland, College Park, Maryland, 20742, USA
| | - Arthur R Grossman
- Department of Plant Biology, Carnegie Institution for Science, Stanford, California, 94305, USA
| | - Shan Lu
- School of Life Sciences, Nanjing University, Nanjing, 210093, China
| | - Kirsten Müller
- Department of Biology, University of Waterloo, Waterloo, Ontario, N2L 3G1, Canada
| | - John W Stiller
- Department of Biology, East Carolina University, Greenville, North Carolina, 27834, USA
| | - Susan H Brawley
- School of Marine Sciences, University of Maine, Orono, Maine, 04469, USA
| | - Debashish Bhattacharya
- Department of Ecology, Evolution and Natural Resources, Institute of Marine and Coastal Sciences, Rutgers University, New Brunswick, New Jersey, 08901, USA
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23
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Taylor AR, Brownlee C, Wheeler GL. Proton channels in algae: reasons to be excited. TRENDS IN PLANT SCIENCE 2012; 17:675-84. [PMID: 22819465 DOI: 10.1016/j.tplants.2012.06.009] [Citation(s) in RCA: 62] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/10/2012] [Revised: 06/14/2012] [Accepted: 06/18/2012] [Indexed: 05/08/2023]
Abstract
A fundamental requirement of all eukaryotes is the ability to translocate protons across membranes. This is critical in bioenergetics, for compartmentalized metabolism, and to regulate intracellular pH (pH(i)) within a range that is compatible with cellular metabolism. Plants, animals, and algae utilize specialized transport machinery for membrane energization and pH homeostasis that reflects the prevailing ionic conditions in which they evolved. The recent characterization of H(+)-permeable channels in marine and freshwater algae has led to the discovery of novel functions for these transport proteins in both cellular pH homeostasis and sensory biology. Here we review the potential implications for understanding the origins and evolution of membrane excitability and the phytoplankton-based marine ecosystem responses to ocean acidification.
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Affiliation(s)
- Alison R Taylor
- Department of Biology and Marine Biology, University of North Carolina Wilmington, 601 South College Road, Wilmington, NC 28409, USA.
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24
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de Oliveira LS, Gregoracci GB, Silva GGZ, Salgado LT, Filho GA, Alves-Ferreira M, Pereira RC, Thompson FL. Transcriptomic analysis of the red seaweed Laurencia dendroidea (Florideophyceae, Rhodophyta) and its microbiome. BMC Genomics 2012; 13:487. [PMID: 22985125 PMCID: PMC3534612 DOI: 10.1186/1471-2164-13-487] [Citation(s) in RCA: 61] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/26/2012] [Accepted: 08/31/2012] [Indexed: 11/16/2022] Open
Abstract
Background Seaweeds of the Laurencia genus have a broad geographic distribution and are largely recognized as important sources of secondary metabolites, mainly halogenated compounds exhibiting diverse potential pharmacological activities and relevant ecological role as anti-epibiosis. Host-microbe interaction is a driving force for co-evolution in the marine environment, but molecular studies of seaweed-associated microbial communities are still rare. Despite the large amount of research describing the chemical compositions of Laurencia species, the genetic knowledge regarding this genus is currently restricted to taxonomic markers and general genome features. In this work we analyze the transcriptomic profile of L. dendroidea J. Agardh, unveil the genes involved on the biosynthesis of terpenoid compounds in this seaweed and explore the interactions between this host and its associated microbiome. Results A total of 6 transcriptomes were obtained from specimens of L. dendroidea sampled in three different coastal locations of the Rio de Janeiro state. Functional annotations revealed predominantly basic cellular metabolic pathways. Bacteria was the dominant active group in the microbiome of L. dendroidea, standing out nitrogen fixing Cyanobacteria and aerobic heterotrophic Proteobacteria. The analysis of the relative contribution of each domain highlighted bacterial features related to glycolysis, lipid and polysaccharide breakdown, and also recognition of seaweed surface and establishment of biofilm. Eukaryotic transcripts, on the other hand, were associated with photosynthesis, synthesis of carbohydrate reserves, and defense mechanisms, including the biosynthesis of terpenoids through the mevalonate-independent pathway. Conclusions This work describes the first transcriptomic profile of the red seaweed L. dendroidea, increasing the knowledge about ESTs from the Florideophyceae algal class. Our data suggest an important role for L. dendroidea in the primary production of the holobiont and the role of Bacteria as consumers of organic matter and possibly also as nitrogen source. Furthermore, this seaweed expressed sequences related to terpene biosynthesis, including the complete mevalonate-independent pathway, which offers new possibilities for biotechnological applications using secondary metabolites from L. dendroidea.
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Affiliation(s)
- Louisi Souza de Oliveira
- Departamento de Biologia Marinha, Instituto de Biologia, Universidade Federal do Rio de Janeiro (UFRJ) Av, Carlos Chagas Filho, 373-CCS - IB - BLOCO A (ANEXO) A3- 202, Rio de Janeiro, 21941-599, Brazil
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